Our most recent work on the “function and evolution” of #nuclear-speckles is now online at Cell @cp-cell.bsky.social doi.org/10.1016/j.ce... Read the thread👇 for the highlights of our findings.
Redirecting
doi.org
Martin Franke
@martinfranke.bsky.social
🇪🇺 Researcher @cabd-upo-csic.bsky.social in Seville 🇪🇦 | LaCaixa Junior leader & RyC fellow. Studying gene regulation in development and disease. Formerly with Gómez-Skarmeta 🇪🇦 and Mundlos laboratories 🇩🇪.
🚨 1/ Preprint Alert! Sex determination outcome is conserved across vertebrates (i.e. generating 2 compatible sexes) ♀️♂️ But are the cell types and gene programs behind them conserved too? 🧬 Spoiler: not really 👀 Find out in our new preprint ⬇️ www.biorxiv.org/content/10.6...
biorxiv.org
🧬 We’re #Hiring a #Bioinformatician/ Computational Biologist! #Single-cell genomics, #Epigenomics & #3Dgenome biology in #Zebrafish #DevBio 🐟 📍 @cabd-upo-csic.bsky.social, CABD, Seville (Spain) 🕒 Full-time, 3-year position (start March 2026) 📅 Apply by Feb 15, 2026 👉 drive.google.com/file/d/1M8rp...
Job offer 2026.pdf
drive.google.com
📢 We are hiring! 👩🏾⚕️Research technician/Lab manager 📍 @cabd-upo-csic.bsky.social , Sevilla, Spain 🧬 Gene regulation in animal development & evolution Check the details 👇 & join us! drive.google.com/file/d/1cZJi... #ResearchTechnician #Zebrafish #GeneRegulation #DevelopmentalBiology
We’re looking for a research technician to join our teams with @christinapaliou.bsky.social Passionate about Zebrafish and gene regulation? 🐟🧬 Apply now and dive into exciting research with us! ✨ See the job offer below 👇
Christina Paliou@christinapaliou.bsky.social · 10mo ago📢 We are hiring! 👩🏾⚕️Research technician/Lab manager 📍 @cabd-upo-csic.bsky.social , Sevilla, Spain 🧬 Gene regulation in animal development & evolution Check the details 👇 & join us! drive.google.com/file/d/1cZJi... #ResearchTechnician #Zebrafish #GeneRegulation #DevelopmentalBiology
Out today. 🙏 again to everyone for this wonderful piece of work, in particular to Aurelie @aurhin.bsky.social Chase @chasebolt.bsky.social and Brent @homeobox.bsky.social. 🙏 also to the Harris lab @fish4walking.bsky.social and @neilshubin.bsky.social @biology-unige.bsky.social @college-de-france.fr
Are digits modified fins, or evolutionary innovations? Read how we tackled this old question from a new angle🧪 A story with @chasebolt.bsky.social, @homeobox.bsky.social and myself, coordinated by @denisduboule.bsky.social from @college-de-france.fr and published in @nature.com today! #InHoxWeTrust
#Preprint alert! 📣 We are thrilled to share the work led by Lara Zorro-Shahidian and Lucio di Filippo, in which we show that #MLL2 controls gene expression in both #ESC and upon #differentiation by facilitating the #enhancer like activity of #LINE1 elements www.biorxiv.org/cgi/content/...
MLL2 facilitates long-range gene regulation through LINE1 elements
Transcriptional regulation is tightly linked to chromatin organization, with H3K4me3 commonly marking both active and bivalent promoters. In embryonic stem cells (ESC), MLL2 is essential for H3K4me3 d...
biorxiv.org
Great work from the #CABD researchers in this call of @ageinves.bsky.social for the ‘Proyectos de generación de conocimientos’! The provisional resolution proposes funding for: 🟢 13 projects 🟢 3 PhD contracts 🟢 ~ 3,5 million € Way to go!!!
No new genes needed to fly - just rewire what you have! 🦇🧬 Great new paper from the labs of @fany-real.bsky.social @stemundi.bsky.social @dariloops.bsky.social doi.org/10.1038/s415... #EvoDevo #SingleCell #BatWings
Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene programme in bat wing development - Nature Ecology & Evolution
Single-cell comparison of developing bat and mouse limbs reveals conservation of cell populations and gene expression patterns, and suggests repurposing of genes involved in proximal limb development ...
doi.org
Max Planck Institute for Molecular Genetics@molgen.mpg.de · last yr.How did the bat get its wings? New research from a collaboration between the labs of Stefan Mundlos (MPIMG), Dario G. Lupiáñez, and Francisca M. Real (@cabd-upo-csic.bsky.social) show how genetic programs were reused during the evolution of mammalian flight. --> www.molgen.mpg.de/news-2025-fl...
Our work bridging enhancer-promoter proximity to phenotypic outcomes in vivo is out! Shout out to @olimpiabompadre.bsky.social, to Marie Kmita's lab, and to all the co-authors. www.nature.com/articles/s41...
Liebenberg syndrome severity arises from variations in Pitx1 locus topology and proportion of ectopically transcribing cells - Nature Communications
Here the authors show that reducing enhancer-promoter distance at the Pitx1 locus increases proportion of Pitx1 forelimb expressing cells, worsening skeletal defects in Liebenberg syndrome. They also ...
nature.com
Congratulations, Julian @julianeg.bsky.social! It was an exciting project, and I am happy to have contributed. Wonderful to see the paper in its final form.
Nature Genetics@natgenet.nature.com · last yr.🎉ONLINE @natgenet.nature.com 📰Enhancer adoption by an LTR retrotransposon generates viral-like particles, causing developmental limb phenotypes. By @julianeg.bsky.social, Giulia Cova, Stefan Mundlos and colleagues. ⬇️ www.nature.com/articles/s41...
🧵1/3 Our new preprint is out! Proud to have contributed to this collaborative study. We identified the enhancer cluster responsible for GPR101 overexpression in X-linked acrogigantism (X-LAG) - a key step toward understanding this rare pituitary disorder 🧠🧬 🔗 www.medrxiv.org/content/10.1...
Distinguishing benign from pathogenic duplications involving GPR101 and VGLL1-adjacent enhancers in the clinical setting with the bioinformatic tool POSTRE
Background Structural variants (SVs) that disrupt topologically associating domains (TADs) can cause disease by rewiring enhancer-promoter interactions. Duplications involving GPR101 are known to caus...
medrxiv.org
I am very proud of you, Marta. You did outstanding work in the lab, and your defence was spotless. I am also very happy to now know an expert in gene compensation between paralogous genes!
Centro Andaluz de Biología del Desarrollo@cabd-upo-csic.bsky.social · last yr.Congratulations to the new PhD at #CABD: Marta Moreno Oñate! Dr. Moreno did an amazing job explaining the projects of her PhD work! Marta's thesis was done with @pablodeolavide.upo.es’s PhD program and was co-supervised by @martinfranke.bsky.social and Juan Tena!
Comparison between a neuronal massively parallel reporter assay for 50,000 sequences and 20,000 variants with mouse enhancer assays provide complimentary information. Great work by Michael Kosicki, Dianne Laboy Cintrón, Len Pennacchio, Martin Kircher lab & many others. www.nature.com/articles/s41...
Massively parallel reporter assays and mouse transgenic assays provide correlated and complementary information about neuronal enhancer activity - Nature Communications
MPRAs and in vivo transgenic mouse assays are two potentially complementary ways to assay the impact of noncoding variants. Here, authors find a strong and specific correlation between the assays in n...
nature.com
🚨 Preprint 🚨 Ever wondered how cells prepare their genomes to enable new cell-fates? In this team up with the Kind lab, we show that genes are repositioned in the nucleus to get ready for future activation and tissue formation. Read 🧵👇 to find out how and when this happens! doi.org/10.1101/2025...
Reconfiguration of genome-lamina interactions marks the commissioning of limb cell-fates
Diverse forms of heterochromatin block inappropriate transcription and safeguard differentiation and cell identity. Yet, how and when heterochromatin is reconfigured to facilitate changes in cell-fate...
biorxiv.org
Our BAT paper is accepted in Nature Ecology & Evolution! Single cell, gene regulation, TADs and key TFs that shape the bat wing. Genomics goes Evodevo 😍
😱 A very hungry #PacManoid ate the original post 🍬🍬🍬 Here’s the 🧵 on our latest in @cp-cellstemcell.bsky.social again! Gastruloids w/ a sweet tooth better model natural embryos: doi.org/10.1016/j.st... Spearheaded by @cryaaa.bsky.social & Alba Villaronga-Luque @mpi-cbg.de @poldresden.bsky.social
🚨 Preprint alert 🚨 Excited to share our work on "Ab-trapping," an antibody artifact causing misleading peripheral ("rim") staining in imaging & genomics (IF, CUT&Tag, CUT&RUN). Antibodies fail to penetrate structures, accumulating at the periphery. A 🧵👇 doi.org/10.1101/2025...
Ab-trapping - a peripheral staining artifact in antibody-based microscopy and genomics
Antibodies (Ab) are essential for detecting specific epitopes in microscopy and genomics, but can produce artifacts leading to erroneous interpretations. Here, we characterize a novel artifact, Ab-tra...
doi.org
We’ve just launched our new website! 🚀 Check it out and stay tuned for updates! 🖥️ 🧬 🧫 🐁 fmreallab.github.io/website/
Here is the peer-reviewed version of our study showing how some TAD borders are essential for gene regulation and development. Loss of a single CTCF motif is sufficient to cause embryonic lethality. www.sciencedirect.com/science/arti...
Deletion of a single CTCF motif at the boundary of a chromatin domain with three FGF genes disrupts gene expression and embryonic development
Chromatin domains delimited by CTCF can restrict the range of enhancer action. However, disruption of some domain boundaries results in mild gene dysr…
sciencedirect.com
Tumors need a lot of nutrients to grow. By engineering and implanting fat cells to outcompete cancers for nutrients we can suppress them. Novel cancer therapy called Adipose Manipulation Transplantation (AMT). AMAZING work led by and dedicated to Hai Nguyen. www.nature.com/articles/s41...
Implantation of engineered adipocytes suppresses tumor progression in cancer models - Nature Biotechnology
Adipose manipulation transplantation can reduce tumor growth and proliferation in vitro and in mouse models.
nature.com
X account deactivated. Rest in peace, Twitter. "Ich kann nicht so viel fressen, wie ich kotzen möchte." Max Liebermann, 1933
Ever wondered how 3D chromatin rewires during differentiation? We wanted to understand this process better & distinguish if different processes or elements drive this rewiring. To do so, we used mESC=>NPC differentiation and focused on a single locus. biorxiv.org/content/10.110… 1/17
biorxiv.org
Deep conservation of cis-regulatory elements and chromatin organization in echinoderms uncover ancestral regulatory features of animal genomes https://www.biorxiv.org/content/10.1101/2024.11.30.626178v1
Deep conservation of cis-regulatory elements and chromatin organization in echinoderms uncover ancestral regulatory features of animal genomes https://www.biorxiv.org/content/10.1101/2024.11.30.626178v1
Despite the growing abundance of sequenced animal genomes, we only have detailed knowledge of regula
biorxiv.org
🚨Preprint alert! tinyurl.com/2zkmynsd Did you ever dream of reconstruction #spatial single-cell #enhancer activity in a multicellular organism using massively parallel enhancer-reporter assays? Then Spatial-scERA is the method for you! #spatialOMICs
Spatial reconstruction of single-cell enhancer activity in a multicellular organism
Enhancers play an essential role in developmental processes by orchestrating the spatial and temporal regulation of gene expression. However, mapping the location of these regulatory elements in the g...
tinyurl.com
Ever wondered how bats develop wings from their hands? 🦇✨ Check out our new preprint and the thread below! 🤓 👏Big applause to our amazing first authors Magdalena Schindler and Christian Feregrino and thanks to all our co-authors for their help! 🥂 www.biorxiv.org/content/10.1...
Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene program in bat wing development
Bats are the only mammals capable of self-powered flight, an evolutionary innovation based on the transformation of forelimbs into wings. The bat wing is characterized by an extreme elongation of the ...
biorxiv.org